reglScatterplotR
This is the development version of reglScatterplotR; to use it, please install the devel version of Bioconductor.
Interactive WebGL Scatterplots for Biological Data Exploration
Bioconductor version: Development (3.24)
Lightweight 'htmlwidgets' interface to the JavaScript 'regl-scatterplot' library, rendering millions of two-dimensional points in the browser via WebGL. Designed for exploratory visualisation of single-cell, spatial transcriptomics and other high-dimensional biological data. Features include synchronised pan/zoom across multiple plots, categorical and continuous colour mapping, lasso selection, range and category filtering, PNG/SVG/PDF export, and Shiny integration. The widget works in the 'RStudio' Viewer, standalone HTML files, Shiny applications and Jupyter notebooks running the 'IRkernel'.
Author: George Muñoz [aut, cre]
Maintainer: George Muñoz <george.munoz at unmsm.edu.pe>
citation("reglScatterplotR")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("reglScatterplotR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("reglScatterplotR")| Interactive WebGL Scatterplots with reglScatterplot | HTML | R Script |
| Scaling reglScatterplot to millions of points | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DimensionReduction, GeneExpression, ShinyApps, SingleCell, Software, Spatial, Transcriptomics, Visualization |
| Version | 0.99.6 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.6.0) |
| Imports | SingleCellExperiment, SummarizedExperiment, htmlwidgets, jsonlite, viridisLite, RColorBrewer, grDevices, methods, stats, shiny |
| System Requirements | |
| URL | https://github.com/george123ya/reglScatterplotR |
| Bug Reports | https://github.com/george123ya/reglScatterplotR/issues |
See More
| Suggests | testthat (>= 3.0.0), knitr, rmarkdown, markdown, BiocStyle, SpatialExperiment, SeuratObject, anndataR, crosstalk, DT |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | reglScatterplotR_0.99.6.tar.gz |
| Windows Binary (x86_64) | reglScatterplotR_0.99.6.zip |
| macOS Binary (big-sur-x86_64) | reglScatterplotR_0.99.6.tgz |
| macOS Binary (sonoma-arm64) | reglScatterplotR_0.99.6.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/reglScatterplotR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/reglScatterplotR |
| Bioc Package Browser | https://code.bioconductor.org/browse/reglScatterplotR/ |
| Package Short Url | https://bioconductor.org/packages/reglScatterplotR/ |
| Package Downloads Report | Download Stats |